MolNFT v1 · #190761 · protein

Apo-ADGRG2 coupled to gs

7YP7 · Guanine nucleotide-binding protein G(S) subunit alpha…: “Apo-ADGRG2 coupled to gs”. Electron microscopy, 14 pockets (best druggability 0.85). MolNFT v1 #190761 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7YP7
Type: protein
Length: 1,007 residues
Chains: 5
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Guanine nucleotide-binding protein G(S) subunit alpha isoforms short; Guanine…
UniProt: P63092, P62873, P59768, Q8CJ12
Pockets: 14 · best druggability 0.85

Structure

electron microscopy · 5 distinct chains · 29% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Guanine nucleotide-binding protein G(S) subunit alpha isoforms short	protein	234	30% helix, 16% strand	P63092
B	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	protein	340	7% helix, 43% strand	P62873
G	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	protein	58	53% helix, 0% strand	P59768
N	Nano-body 35	protein	128	0% helix, 45% strand	—
R	Adhesion G-protein coupled receptor G2	protein	247	67% helix, 0% strand	Q8CJ12

Pockets

14 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1004	0.85	0.86	78	empty
2	957	0.74	0.78	54	empty
3	774	0.74	0.79	56	empty
4	655	0.72	0.79	66	empty
5	556	0.70	0.78	33	empty

Interfaces

6 interfaces between chains.

B–G · 2144 Å² buried · 13 hydrogen bonds · protein-protein
A–B · 1391 Å² buried · 12 hydrogen bonds · protein-protein
A–R · 1165 Å² buried · 5 hydrogen bonds · protein-protein
A–N · 822 Å² buried · 8 hydrogen bonds · protein-protein
B–N · 524 Å² buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

7YP7 · apo-ADGRG2 coupled to Gs · the same entry in another collection · chain R against R, TM-score 1.00
P62873 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain B against A, TM-score 0.99
Q8CJ12 · AlphaFold monomer V2.0 prediction for adhesion G-protein coupled receptor G2 (Q8CJ12) · a predicted model of the same protein · chain R against A, TM-score 0.91
P59768 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain G against A, TM-score 0.89

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P63092
Every structure of UniProt P62873
Every structure of UniProt P59768
Every structure of UniProt Q8CJ12
Elsewhere: RCSB PDB 7YP7 · PDBe 7YP7 · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt Q8CJ12

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